HEADER GROWTH FACTOR 06-DEC-96 1BFF TITLE THE 154 AMINO ACID FORM OF HUMAN BASIC FIBROBLAST GROWTH FACTOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: BASIC FIBROBLAST GROWTH FACTOR; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BFGF; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: MC1061; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PHD329 KEYWDS GROWTH FACTOR EXPDTA X-RAY DIFFRACTION AUTHOR J.S.KASTRUP,E.S.ERIKSSON REVDAT 3 02-AUG-23 1BFF 1 REMARK LINK REVDAT 2 24-FEB-09 1BFF 1 VERSN REVDAT 1 16-JUN-97 1BFF 0 JRNL AUTH J.S.KASTRUP,E.S.ERIKSSON,H.DALBOGE,H.FLODGAARD JRNL TITL X-RAY STRUCTURE OF THE 154-AMINO-ACID FORM OF RECOMBINANT JRNL TITL 2 HUMAN BASIC FIBROBLAST GROWTH FACTOR. COMPARISON WITH THE JRNL TITL 3 TRUNCATED 146-AMINO-ACID FORM. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 53 160 1997 JRNL REFN ISSN 0907-4449 JRNL PMID 15299950 JRNL DOI 10.1107/S0907444996012711 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TNT REMARK 3 AUTHORS : TRONRUD,TEN EYCK,MATTHEWS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 84.0 REMARK 3 NUMBER OF REFLECTIONS : 7035 REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.1900 REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1039 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 67 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : 22.000 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : 0.020 ; 1.000 ; 1069 REMARK 3 BOND ANGLES (DEGREES) : 2.700 ; 2.000 ; 1425 REMARK 3 TORSION ANGLES (DEGREES) : 23.600; 2.000 ; 647 REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : 0.014 ; 2.500 ; 23 REMARK 3 GENERAL PLANES (A) : 0.018 ; 5.500 ; 155 REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : 2.000 ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS (A) : 0.022 ; 20.000; 35 REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : TNT PROTGEO REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE B-FACTORS WERE REFINED USING PROLSQ. REMARK 3 REMARK 3 THERE IS ONE RESIDUE (SER 151) WITH DEVIATING PHI, PSI REMARK 3 ANGLES IN THE RAMACHANDRAN PLOT. REMARK 4 REMARK 4 1BFF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000171691. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : JUL-91 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RUH2R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : XUONG-HAMLIN MULTIWIRE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XUONG-HAMLIN (DETECTOR SYSTEM) REMARK 200 DATA SCALING SOFTWARE : XUONG-HAMLIN (DETECTOR SYSTEM) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7035 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 84.0 REMARK 200 DATA REDUNDANCY : 2.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04700 REMARK 200 FOR THE DATA SET : 9.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 46.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.20100 REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: DIFFERENCE FOURIER REMARK 200 SOFTWARE USED: TNT REMARK 200 STARTING MODEL: PDB ENTRY 4FGF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THE PROTEIN WAS CRYSTALLIZED FROM 30 REMARK 280 -40 % PEG1000 AND 0.2-0.3 % 2-MERCAPTOETHANOL BY THE HANGING REMARK 280 DROP VAPOR DIFFUSION METHOD., PH 7.5, VAPOR DIFFUSION - HANGING REMARK 280 DROP, VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 53 CD GLU A 53 OE2 0.093 REMARK 500 GLU A 66 CD GLU A 66 OE2 0.092 REMARK 500 GLU A 67 CD GLU A 67 OE2 0.068 REMARK 500 GLU A 104 CD GLU A 104 OE1 -0.081 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 27 CB - CG - OD1 ANGL. DEV. = -6.1 DEGREES REMARK 500 ASP A 27 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 PRO A 28 C - N - CD ANGL. DEV. = -14.3 DEGREES REMARK 500 TYR A 32 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ASP A 45 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ASP A 45 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ASP A 49 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG A 52 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP A 56 CB - CG - OD1 ANGL. DEV. = 6.4 DEGREES REMARK 500 ASP A 56 CB - CG - OD2 ANGL. DEV. = -7.4 DEGREES REMARK 500 ASP A 87 CB - CG - OD2 ANGL. DEV. = 6.8 DEGREES REMARK 500 ARG A 89 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG A 89 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP A 98 CB - CG - OD2 ANGL. DEV. = -8.3 DEGREES REMARK 500 ARG A 117 NE - CZ - NH1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ARG A 117 NE - CZ - NH2 ANGL. DEV. = -6.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 49 -166.98 -161.54 REMARK 500 ALA A 65 88.40 -67.81 REMARK 500 GLU A 67 166.98 172.20 REMARK 500 THR A 120 -18.42 -35.85 REMARK 500 SER A 151 -153.89 111.16 REMARK 500 ALA A 152 151.91 134.92 REMARK 500 LYS A 153 155.46 147.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 156 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 157 DBREF 1BFF A 26 154 UNP P09038 FGF2_HUMAN 27 155 SEQRES 1 A 129 LYS ASP PRO LYS ARG LEU TYR CYS LYS ASN GLY GLY PHE SEQRES 2 A 129 PHE LEU ARG ILE HIS PRO ASP GLY ARG VAL ASP GLY VAL SEQRES 3 A 129 ARG GLU LYS SER ASP PRO HIS ILE LYS LEU GLN LEU GLN SEQRES 4 A 129 ALA GLU GLU ARG GLY VAL VAL SER ILE LYS GLY VAL CYS SEQRES 5 A 129 ALA ASN ARG TYR LEU ALA MET LYS GLU ASP GLY ARG LEU SEQRES 6 A 129 LEU ALA SER LYS CYS VAL THR ASP GLU CYS PHE PHE PHE SEQRES 7 A 129 GLU ARG LEU GLU SER ASN ASN TYR ASN THR TYR ARG SER SEQRES 8 A 129 ARG LYS TYR THR SER TRP TYR VAL ALA LEU LYS ARG THR SEQRES 9 A 129 GLY GLN TYR LYS LEU GLY SER LYS THR GLY PRO GLY GLN SEQRES 10 A 129 LYS ALA ILE LEU PHE LEU PRO MET SER ALA LYS SER HET PO4 A 156 5 HET BME A 157 4 HETNAM PO4 PHOSPHATE ION HETNAM BME BETA-MERCAPTOETHANOL FORMUL 2 PO4 O4 P 3- FORMUL 3 BME C2 H6 O S FORMUL 4 HOH *67(H2 O) HELIX 1 1 PRO A 57 ILE A 59 5 3 HELIX 2 2 GLY A 135 LYS A 137 5 3 HELIX 3 3 LYS A 143 ILE A 145 5 3 SHEET 1 A 2 LYS A 29 CYS A 33 0 SHEET 2 A 2 PHE A 147 SER A 151 -1 N MET A 150 O ARG A 30 SHEET 1 B 2 PHE A 39 ILE A 42 0 SHEET 2 B 2 VAL A 48 VAL A 51 -1 N VAL A 51 O PHE A 39 SHEET 1 C 4 ASN A 112 SER A 116 0 SHEET 2 C 4 PHE A 101 LEU A 106 -1 N ARG A 105 O THR A 113 SHEET 3 C 4 VAL A 70 GLY A 75 -1 N VAL A 71 O PHE A 102 SHEET 4 C 4 LEU A 61 GLU A 67 -1 N GLU A 67 O VAL A 70 SHEET 1 D 2 TYR A 81 MET A 84 0 SHEET 2 D 2 LEU A 90 SER A 93 -1 N SER A 93 O TYR A 81 LINK SG CYS A 77 S2 BME A 157 1555 1555 2.07 SITE 1 AC1 7 ASN A 35 LYS A 127 ARG A 128 LYS A 133 SITE 2 AC1 7 BME A 157 HOH A 180 HOH A 191 SITE 1 AC2 5 CYS A 77 GLN A 142 PO4 A 156 HOH A 179 SITE 2 AC2 5 HOH A 202 CRYST1 30.800 33.300 36.500 64.10 73.00 76.10 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.032468 -0.008035 -0.007351 0.00000 SCALE2 0.000000 0.030936 -0.013296 0.00000 SCALE3 0.000000 0.000000 0.031183 0.00000